Transcriptome analysis reveals differential transcription in tomato (Solanum lycopersicum) following inoculation with Ralstonia solanacearum

[1]  Guizhi Li,et al.  A Genome-Wide Analysis of StTGA Genes Reveals the Critical Role in Enhanced Bacterial Wilt Tolerance in Potato During Ralstonia solanacearum Infection , 2022, Frontiers in Genetics.

[2]  Xiaorong Wan,et al.  Complete Genome Sequence Analysis of Ralstonia solanacearum Strain PeaFJ1 Provides Insights Into Its Strong Virulence in Peanut Plants , 2022, Frontiers in Microbiology.

[3]  Jingjing Yang,et al.  Dual RNA-seq reveals the global transcriptome dynamics of Ralstonia solanacearum and pepper (Capsicum annuum) hypocotyls during bacterial wilt pathogenesis. , 2021, Phytopathology.

[4]  S. Park,et al.  Ralstonia solanacearum type III effector RipJ triggers bacterial wilt resistance in Solanum pimpinellifolium. , 2021, Molecular plant-microbe interactions : MPMI.

[5]  M. M. Dawuda,et al.  Proteomic analysis reveals key proteins involved in ethylene-induced adventitious root development in cucumber (Cucumis sativus L.) , 2021, PeerJ.

[6]  Zhenguo Chen,et al.  Digital gene expression analysis of the response to Ralstonia solanacearum between resistant and susceptible tobacco varieties , 2021, Scientific Reports.

[7]  Priti,et al.  Comparative RNA-Seq analysis unfolds a complex regulatory network imparting yellow mosaic disease resistance in mungbean [Vigna radiata (L.) R. Wilczek] , 2021, PloS one.

[8]  O. Bouchez,et al.  Convergent Rewiring of the Virulence Regulatory Network Promotes Adaptation of Ralstonia solanacearum on Resistant Tomato , 2020, Molecular biology and evolution.

[9]  Q. Ma,et al.  Wheat thioredoxin (TaTrxh1) associates with the RD19-like cysteine protease TaCP1 to defend against stripe rust fungus through the modulation of programmed cell death. , 2020, Molecular plant-microbe interactions : MPMI.

[10]  Ping Wang,et al.  Transcriptomic and genetic approaches reveal an essential role of the NAC transcription factor SlNAP1 in the growth and defense response of tomato , 2020, Horticulture Research.

[11]  Diqiu Yu,et al.  The transcription factor WRKY75 positively regulates jasmonate-mediated plant defense to necrotrophic fungal pathogens , 2020, Journal of experimental botany.

[12]  G. Van den Ackerveken,et al.  Salicylic Acid Steers the Growth-Immunity Tradeoff. , 2020, Trends in plant science.

[13]  Xiangjing Wang,et al.  A Streptomyces sp. NEAU-HV9: Isolation, Identification, and Potential as a Biocontrol Agent against Ralstonia solanacearum of Tomato Plants , 2020, Microorganisms.

[14]  M. Rouard,et al.  Deep RNA-seq analysis reveals key responding aspects of wild banana relative resistance to Fusarium oxysporum f. sp. cubense tropical race 4 , 2020, Functional & Integrative Genomics.

[15]  Bo Liu,et al.  Combined use of a microbial restoration substrate and avirulent Ralstonia solanacearum for the control of tomato bacterial wilt , 2019, Scientific Reports.

[16]  Zejun Huang,et al.  Anthocyanin Fruit encodes an R2R3-MYB transcription factor, SlAN2-like, activating the transcription of SlMYBATV to fine-tune anthocyanin content in tomato fruit. , 2019, The New phytologist.

[17]  Xin Li,et al.  Salicylic acid: biosynthesis, perception, and contributions to plant immunity. , 2019, Current opinion in plant biology.

[18]  Guoping Wang,et al.  Resistance against Ralstonia solanacearum in tomato depends on the methionine cycle and the &ggr;‐aminobutyric acid metabolic pathway , 2019, The Plant journal : for cell and molecular biology.

[19]  Guoping Wang,et al.  Transcriptome Analysis Reveals New Insights into the Bacterial Wilt Resistance Mechanism Mediated by Silicon in Tomato , 2019, International journal of molecular sciences.

[20]  J. Debbarma,et al.  Ethylene Response Factor (ERF) Family Proteins in Abiotic Stresses and CRISPR–Cas9 Genome Editing of ERFs for Multiple Abiotic Stress Tolerance in Crop Plants: A Review , 2019, Molecular Biotechnology.

[21]  W. Saburi,et al.  The rice ethylene response factor OsERF83 positively regulates disease resistance to Magnaporthe oryzae. , 2019, Plant physiology and biochemistry : PPB.

[22]  Ying Liu,et al.  NtPR1a regulates resistance to Ralstonia solanacearum in Nicotiana tabacum via activating the defense-related genes. , 2019, Biochemical and biophysical research communications.

[23]  Haitao Shi,et al.  Molecular functional analysis of auxin/indole-3-acetic acid proteins (Aux/IAAs) in plant disease resistance in cassava. , 2019, Physiologia plantarum.

[24]  Dong-Soo Park,et al.  OsTGA2 confers disease resistance to rice against leaf blight by regulating expression levels of disease related genes via interaction with NH1 , 2018, PloS one.

[25]  Xiaojun Shi,et al.  A putative LysR-type transcriptional regulator PrhO positively regulates the type III secretion system and contributes to the virulence of Ralstonia solanacearum. , 2018, Molecular plant pathology.

[26]  D. Inzé,et al.  The Pivotal Role of Ethylene in Plant Growth , 2018, Trends in plant science.

[27]  Jia Gu,et al.  fastp: an ultra-fast all-in-one FASTQ preprocessor , 2018, bioRxiv.

[28]  Riyue Dong,et al.  RNA-Seq-derived identification of differential transcription in the eggplant (Solanum melongena) following inoculation with bacterial wilt. , 2018, Gene.

[29]  A. Iyer-Pascuzzi,et al.  Whole Root Transcriptomic Analysis Suggests a Role for Auxin Pathways in Resistance to Ralstonia solanacearum in Tomato. , 2017, Molecular plant-microbe interactions : MPMI.

[30]  M. Ohkuma,et al.  Comparison of Prokaryotic and Eukaryotic Communities in Soil Samples with and without Tomato Bacterial Wilt Collected from Different Fields , 2017, Microbes and environments.

[31]  Ajay Kumar,et al.  Disease management of tomato through PGPB: current trends and future perspective , 2017, 3 Biotech.

[32]  T. Mukhtar,et al.  Evaluation of chili germplasm for resistance to bacterial wilt caused by Ralstonia solanacearum , 2017, Australasian Plant Pathology.

[33]  Xuewei Chen,et al.  Activation of ethylene signaling pathways enhances disease resistance by regulating ROS and phytoalexin production in rice , 2017, The Plant journal : for cell and molecular biology.

[34]  M. J. López-Galiano,et al.  Epigenetic regulation of the expression of WRKY75 transcription factor in response to biotic and abiotic stresses in Solanaceae plants , 2017, Plant Cell Reports.

[35]  W. Niu,et al.  Yields and Nutritional of Greenhouse Tomato in Response to Different Soil Aeration Volume at two depths of Subsurface drip irrigation , 2016, Scientific Reports.

[36]  Jeffrey T Leek,et al.  Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown , 2016, Nature Protocols.

[37]  T. H. Smits,et al.  Fire blight disease reactome: RNA-seq transcriptional profile of apple host plant defense responses to Erwinia amylovora pathogen infection , 2016, Scientific Reports.

[38]  H. Baek,et al.  Evaluation of Resistance to Ralstonia solanacearum in Tomato Genetic Resources at Seedling Stage , 2016, The plant pathology journal.

[39]  N. Anjum,et al.  Salicylic acid-induced abiotic stress tolerance and underlying mechanisms in plants , 2015, Front. Plant Sci..

[40]  X. Deng,et al.  Salicylic acid biosynthesis is enhanced and contributes to increased biotrophic pathogen resistance in Arabidopsis hybrids , 2015, Nature Communications.

[41]  C. Buell,et al.  Transcriptome responses to Ralstonia solanacearum infection in the roots of the wild potato Solanum commersonii , 2015, BMC Genomics.

[42]  Steven L Salzberg,et al.  HISAT: a fast spliced aligner with low memory requirements , 2015, Nature Methods.

[43]  K. Toyota,et al.  Recent Trends in Control Methods for Bacterial Wilt Diseases Caused by Ralstonia solanacearum , 2015, Microbes and environments.

[44]  S. Salzberg,et al.  StringTie enables improved reconstruction of a transcriptome from RNA-seq reads , 2015, Nature Biotechnology.

[45]  W. Huber,et al.  Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 , 2014, Genome Biology.

[46]  W. Lei,et al.  Effects of exogenous silicon supply on the activity of antioxidant enzymes of tomato leaves infected by Ralstonia solanacearum , 2014 .

[47]  Xiangchun Yu,et al.  Overexpression of constitutively active OsCPK10 increases Arabidopsis resistance against Pseudomonas syringae pv. tomato and rice resistance against Magnaporthe grisea. , 2013, Plant physiology and biochemistry : PPB.

[48]  Mauricio O. Carneiro,et al.  From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline , 2013, Current protocols in bioinformatics.

[49]  Ling Zhou,et al.  Transcriptome and Expression Profile Analysis of Highly Resistant and Susceptible Banana Roots Challenged with Fusarium oxysporum f. sp. cubense Tropical Race 4 , 2013, PloS one.

[50]  Yan Zhang,et al.  Transcriptome profiling of Gossypium barbadense inoculated with Verticillium dahliae provides a resource for cotton improvement , 2013, BMC Genomics.

[51]  M. Valls,et al.  Ralstonia solanacearum, a widespread bacterial plant pathogen in the post-genomic era. , 2013, Molecular plant pathology.

[52]  Jaw-fen Wang,et al.  Identification of major QTLs associated with stable resistance of tomato cultivar ‘Hawaii 7996’ to Ralstonia solanacearum , 2013, Euphytica.

[53]  Jaw-fen Wang,et al.  Identification of major QTLs associated with stable resistance of tomato cultivar ‘Hawaii 7996’ to Ralstonia solanacearum , 2012, Euphytica.

[54]  D. Choi,et al.  RNA-seq pinpoints a Xanthomonas TAL-effector activated resistance gene in a large-crop genome , 2012, Proceedings of the National Academy of Sciences.

[55]  Hideki Takahashi,et al.  Transcriptome Analysis of Quantitative Resistance-Specific Response upon Ralstonia solanacearum Infection in Tomato , 2012, PloS one.

[56]  C. Allen,et al.  The In Planta Transcriptome of Ralstonia solanacearum: Conserved Physiological and Virulence Strategies during Bacterial Wilt of Tomato , 2012, mBio.

[57]  Steven L Salzberg,et al.  Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.

[58]  Fengzhi Wu,et al.  Dynamics of the diversity of fungal and Fusarium communities during continuous cropping of cucumber in the greenhouse. , 2012, FEMS microbiology ecology.

[59]  M. Ercolano,et al.  Genetic and genomic approaches for R-gene mediated disease resistance in tomato: retrospects and prospects , 2012, Plant Cell Reports.

[60]  K. Nielsen,et al.  The Transcriptome of Compatible and Incompatible Interactions of Potato (Solanum tuberosum) with Phytophthora infestans Revealed by DeepSAGE Analysis , 2012, PloS one.

[61]  H. Hsieh,et al.  Induction of Tomato Jasmonate-Resistant 1-Like 1 Gene Expression Can Delay the Colonization of Ralstonia Solanacearum in Transgenic Tomato , 2012 .

[62]  Wei Ma Roles of Ca2+ and cyclic nucleotide gated channel in plant innate immunity. , 2011, Plant science : an international journal of experimental plant biology.

[63]  C. Allen,et al.  Ralstonia solanacearum Extracellular Polysaccharide Is a Specific Elicitor of Defense Responses in Wilt-Resistant Tomato Plants , 2011, PloS one.

[64]  Youfu Zhao,et al.  Autophosphorylation of Tyr-610 in the receptor kinase BAK1 plays a role in brassinosteroid signaling and basal defense gene expression , 2010, Proceedings of the National Academy of Sciences.

[65]  S. Genin Molecular traits controlling host range and adaptation to plants in Ralstonia solanacearum. , 2010, The New phytologist.

[66]  M. Kojima,et al.  The cytokinin-activated transcription factor ARR2 promotes plant immunity via TGA3/NPR1-dependent salicylic acid signaling in Arabidopsis. , 2010, Developmental cell.

[67]  Chiu-Ping Cheng,et al.  Ectopic expression of an EAR motif deletion mutant of SlERF3 enhances tolerance to salt stress and Ralstonia solanacearum in tomato , 2010, Planta.

[68]  E. Grill,et al.  ABA perception and signalling. , 2010, Trends in plant science.

[69]  S. Robatzek,et al.  Ethylene Signaling Regulates Accumulation of the FLS2 Receptor and Is Required for the Oxidative Burst Contributing to Plant Immunity1[W] , 2010, Plant Physiology.

[70]  Jonathan D. G. Jones,et al.  Interfamily transfer of a plant pattern-recognition receptor confers broad-spectrum bacterial resistance , 2010, Nature Biotechnology.

[71]  Jaw-fen Wang,et al.  Development and characterization of tomato SSR markers from genomic sequences of anchored BAC clones on chromosome 6 , 2010, Euphytica.

[72]  Mark D. Robinson,et al.  edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..

[73]  F. Myouga,et al.  Type 2C protein phosphatases directly regulate abscisic acid-activated protein kinases in Arabidopsis , 2009, Proceedings of the National Academy of Sciences.

[74]  D. Klessig,et al.  Salicylic Acid, a multifaceted hormone to combat disease. , 2009, Annual review of phytopathology.

[75]  J. Manners,et al.  Linking development to defense: auxin in plant-pathogen interactions. , 2009, Trends in plant science.

[76]  E. Grill,et al.  Regulators of PP2C Phosphatase Activity Function as Abscisic Acid Sensors , 2009, Science.

[77]  P. McCourt,et al.  Abscisic Acid Inhibits Type 2C Protein Phosphatases via the PYR/PYL Family of START Proteins , 2009, Science.

[78]  D. Inzé,et al.  Jasmonate-inducible gene: What does it mean? , 2009, Trends in plant science.

[79]  Zhou Guozhi,et al.  Genetic diversity of tomato germplasm resources resistant to bacterial wilt (Ralstonia solanacearum) revealed by AFLP. , 2009 .

[80]  M. Gerstein,et al.  RNA-Seq: a revolutionary tool for transcriptomics , 2009, Nature Reviews Genetics.

[81]  Sophia Mersmann,et al.  Plant Pattern-Recognition Receptor FLS2 Is Directed for Degradation by the Bacterial Ubiquitin Ligase AvrPtoB , 2008, Current Biology.

[82]  Lin Ming-bao Preliminary Screening for Bacterial Wilt-resistant Tomato and SSR Marker Linked with Resistance , 2008 .

[83]  Marta Godoy,et al.  ABA Is an Essential Signal for Plant Resistance to Pathogens Affecting JA Biosynthesis and the Activation of Defenses in Arabidopsis[W] , 2007, The Plant Cell Online.

[84]  Jonathan D. G. Jones,et al.  The plant immune system , 2006, Nature.

[85]  Z. Zou,et al.  Overexpression of glucanase gene and defensin gene in transgenic tomato enhances resistance to Ralstonia solanacearum , 2006, Russian Journal of Plant Physiology.

[86]  Felix Mauch,et al.  The role of abscisic acid in plant-pathogen interactions. , 2005, Current opinion in plant biology.

[87]  Jonathan D. G. Jones,et al.  Bacterial disease resistance in Arabidopsis through flagellin perception , 2004, Nature.

[88]  Xinnian Dong,et al.  Inducers of Plant Systemic Acquired Resistance Regulate NPR1 Function through Redox Changes , 2003, Cell.

[89]  Wang Guo-ping A Preliminary Study on the Evaluation of Bacterial Wilt 9DResistance in Tomato by a Stem Imprint Method , 2003 .

[90]  S. Dinesh-Kumar,et al.  Virus-induced gene silencing in tomato. , 2002, The Plant journal : for cell and molecular biology.

[91]  Thomas D. Schmittgen,et al.  Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. , 2001, Methods.

[92]  Chunhong Chen,et al.  Evidence for an Important Role of WRKY DNA Binding Proteins in the Regulation of NPR1 Gene Expression , 2001, The Plant Cell Online.

[93]  M. Osiru,et al.  Inheritance of resistance to tomato bacterial wilt and its implication for potato improvement in Uganda , 2001 .

[94]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[95]  Susumu Goto,et al.  KEGG: Kyoto Encyclopedia of Genes and Genomes , 2000, Nucleic Acids Res..

[96]  B. Mangin,et al.  Temporal and multiple quantitative trait loci analyses of resistance to bacterial wilt in tomato permit the resolution of linked loci. , 1999, Genetics.

[97]  W. Summers,et al.  A Comparison of Pseudomonas solanacearum- resistant Tomato Cultivars as Hybrid Parents , 1995 .

[98]  I. Yano,et al.  Transfer of Two Burkholderia and An Alcaligenes Species to Ralstonia Gen. Nov. , 1995, Microbiology and immunology.

[99]  A. Hayward Biology and epidemiology of bacterial wilt caused by pseudomonas solanacearum. , 1991, Annual review of phytopathology.

[100]  Thomas D. Schmittgen,et al.  Analysis of Relative Gene Expression Data Using Real-Time Quantitative PCR and the 2 2 DD C T Method , 2022 .

[101]  Supplemental Information 2: Kyoto Encyclopedia of genes and genomes. , 2022 .